Fyn (FYN proto-oncogene, Src family tyrosine kinase) - Rat Genome Database

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Gene: Fyn (FYN proto-oncogene, Src family tyrosine kinase) Rattus norvegicus
Analyze
Symbol: Fyn
Name: FYN proto-oncogene, Src family tyrosine kinase
RGD ID: 2641
Description: Enables several functions, including phosphatidylinositol 3-kinase binding activity; protein tyrosine kinase activity; and signaling receptor binding activity. Involved in several processes, including cellular response to organonitrogen compound; negative regulation of cell death; and protein phosphorylation. Located in several cellular components, including mitochondrion; perinuclear endoplasmic reticulum; and postsynaptic density. Is active in glutamatergic synapse and postsynaptic density, intracellular component. Biomarker of temporal lobe epilepsy. Human ortholog(s) of this gene implicated in Alzheimer's disease and schizophrenia. Orthologous to human FYN (FYN proto-oncogene, Src family tyrosine kinase); PARTICIPATES IN altered Reelin signaling pathway; E-cadherin signaling pathway; eicosanoid signaling pathway; INTERACTS WITH 17beta-estradiol; 17beta-estradiol 3-benzoate; 2,3,7,8-tetrachlorodibenzodioxine.
Type: protein-coding
RefSeq Status: PROVISIONAL
Also known as: FYN oncogene related to SRC, FGR, YES; fyn proto-oncogene; p59-Fyn; proto-oncogene c-Fyn; proto-oncogene tyrosine-protein kinase Fyn; tyrosine-protein kinase Fyn
RGD Orthologs
Human
Mouse
Chinchilla
Bonobo
Dog
Squirrel
Pig
Green Monkey
Naked Mole-Rat
Alliance Genes
More Info more info ...
Allele / Splice: Fynem6Mcwi   Fynem1Mcwi  
Genetic Models: SS-Fynem6Mcwi SS-Fynem1Mcwi
Latest Assembly: mRatBN7.2 - mRatBN7.2 Assembly
Position:
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
mRatBN7.22042,767,733 - 42,960,903 (+)NCBImRatBN7.2
mRatBN7.2 Ensembl2042,766,369 - 42,959,911 (+)Ensembl
Rnor_6.02044,436,354 - 44,630,316 (+)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl2044,436,403 - 44,630,317 (+)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.02046,160,734 - 46,353,456 (+)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.42043,501,853 - 43,695,567 (+)NCBIRGSC3.4rn4RGSC3.4
RGSC_v3.12043,524,863 - 43,718,578 (+)NCBI
Celera2043,482,980 - 43,675,123 (+)NCBICelera
Cytogenetic Map20q12NCBI
JBrowse: View Region in Genome Browser (JBrowse)
Model


Gene-Chemical Interaction Annotations     Click to see Annotation Detail View
(-)-epigallocatechin 3-gallate  (ISO)
(R,R,R)-alpha-tocopherol  (ISO)
(S)-nicotine  (ISO)
1-methyl-4-phenyl-1,2,3,6-tetrahydropyridine  (ISO)
17beta-estradiol  (EXP,ISO)
17beta-estradiol 3-benzoate  (EXP)
2,3,7,8-tetrachlorodibenzodioxine  (EXP,ISO)
2-arachidonoylglycerol  (EXP)
2-methylcholine  (ISO)
3,3',4,4',5-pentachlorobiphenyl  (ISO)
3-methylcholanthrene  (ISO)
4,4'-diaminodiphenylmethane  (EXP)
4-hydroxyphenyl retinamide  (ISO)
5-aza-2'-deoxycytidine  (ISO)
5-azacytidine  (ISO)
5-fluorouracil  (ISO)
acetamide  (EXP)
aflatoxin B1  (ISO)
alachlor  (EXP)
all-trans-retinoic acid  (ISO)
ammonium chloride  (EXP)
amphetamine  (EXP)
antigen  (ISO)
antimycin A  (ISO)
arsane  (ISO)
arsenic atom  (ISO)
benzo[a]pyrene  (ISO)
benzo[a]pyrene diol epoxide I  (ISO)
bis(2-chloroethyl) sulfide  (ISO)
bis(2-ethylhexyl) phthalate  (EXP)
bisphenol A  (EXP,ISO)
butanal  (ISO)
Butylparaben  (EXP)
caffeine  (ISO)
calcium dichloride  (ISO)
captan  (ISO)
carmustine  (ISO)
chromium(6+)  (ISO)
cisplatin  (ISO)
cobalt dichloride  (EXP,ISO)
copper atom  (ISO)
copper(0)  (ISO)
copper(II) sulfate  (ISO)
cyclophosphamide  (ISO)
cyclosporin A  (ISO)
cytarabine  (ISO)
D-gluconic acid  (EXP)
DDE  (EXP)
Deguelin  (ISO)
dexamethasone  (EXP)
dextran sulfate  (ISO)
diazinon  (EXP,ISO)
dibutyl phthalate  (EXP)
dieldrin  (EXP)
diuron  (EXP)
dorsomorphin  (ISO)
doxorubicin  (ISO)
enzacamene  (EXP)
epoxiconazole  (EXP)
ethanol  (ISO)
etoposide  (ISO)
folpet  (ISO)
gentamycin  (EXP)
glutathione  (ISO)
haloperidol  (ISO)
L-ascorbic acid  (ISO)
lead diacetate  (EXP)
lead(0)  (EXP)
lead(2+)  (EXP)
linuron  (EXP)
lithium chloride  (EXP)
LY294002  (ISO)
methamphetamine  (ISO)
methoxychlor  (EXP)
methylmercury chloride  (EXP)
methylparaben  (ISO)
methylseleninic acid  (ISO)
mitomycin C  (ISO)
mitoxantrone  (ISO)
N-acetyl-L-cysteine  (ISO)
N-methyl-4-phenylpyridinium  (EXP,ISO)
N-methyl-N'-nitro-N-nitrosoguanidine  (ISO)
N-nitrosodimethylamine  (EXP)
N-Nitrosopyrrolidine  (ISO)
nickel atom  (ISO)
nickel sulfate  (ISO)
nicotine  (ISO)
O-methyleugenol  (ISO)
oxaliplatin  (EXP)
paracetamol  (ISO)
paraquat  (EXP)
pentanal  (ISO)
phenobarbital  (ISO)
phenylarsine oxide  (ISO)
phorbol 13-acetate 12-myristate  (ISO)
picoxystrobin  (ISO)
pirinixic acid  (ISO)
piroxicam  (ISO)
ponatinib  (ISO)
potassium chromate  (ISO)
potassium dichromate  (ISO)
prochloraz  (EXP)
procymidone  (EXP)
propanal  (ISO)
puerarin  (EXP,ISO)
resveratrol  (ISO)
rotenone  (ISO)
Salinomycin  (ISO)
SB 431542  (ISO)
silicon dioxide  (ISO)
silver atom  (ISO)
silver(0)  (ISO)
sodium arsenite  (ISO)
sodium dichromate  (ISO)
Soman  (EXP)
succimer  (ISO)
sunitinib  (ISO)
tamibarotene  (ISO)
tebufenpyrad  (ISO)
testosterone  (EXP)
titanium dioxide  (ISO)
topotecan  (EXP)
tremolite asbestos  (ISO)
trichostatin A  (ISO)
Triptolide  (EXP)
triptonide  (ISO)
urethane  (ISO)
valproic acid  (ISO)
vinclozolin  (EXP)

Gene Ontology Annotations     Click to see Annotation Detail View

Biological Process
activated T cell proliferation  (ISO)
cell differentiation  (IBA)
cell surface receptor signaling pathway  (ISO)
cellular response to amyloid-beta  (ISO)
cellular response to glycine  (IMP)
cellular response to growth factor stimulus  (IEP)
cellular response to L-glutamate  (IMP)
cellular response to peptide hormone stimulus  (IEP)
cellular response to platelet-derived growth factor stimulus  (ISO)
cellular response to transforming growth factor beta stimulus  (ISO)
dendrite morphogenesis  (ISO)
detection of mechanical stimulus involved in sensory perception of pain  (ISO)
forebrain development  (ISO)
heart process  (ISO)
innate immune response  (IBA)
intracellular signal transduction  (ISO)
ionotropic glutamate receptor signaling pathway  (TAS)
modulation of chemical synaptic transmission  (ISO)
negative regulation of dendritic spine maintenance  (ISO)
negative regulation of extrinsic apoptotic signaling pathway in absence of ligand  (IMP)
negative regulation of gene expression  (ISO)
negative regulation of hydrogen peroxide biosynthetic process  (IMP)
negative regulation of neuron apoptotic process  (IMP)
negative regulation of oxidative stress-induced cell death  (IMP)
negative regulation of protein catabolic process  (ISO)
negative regulation of protein ubiquitination  (ISO)
neuron migration  (ISO)
peptidyl-tyrosine phosphorylation  (IDA,IEA,IMP,ISO)
positive regulation of cysteine-type endopeptidase activity  (IMP)
positive regulation of I-kappaB kinase/NF-kappaB signaling  (ISO)
positive regulation of neuron death  (ISO)
positive regulation of neuron projection development  (ISO)
positive regulation of phosphatidylinositol 3-kinase signaling  (IMP)
positive regulation of protein localization to nucleus  (ISO)
positive regulation of protein targeting to membrane  (ISO)
positive regulation of tyrosine phosphorylation of STAT protein  (ISO)
protein autophosphorylation  (IDA,ISO)
protein phosphorylation  (ISO)
regulation of calcium ion import across plasma membrane  (ISO)
regulation of cell shape  (ISO)
regulation of glutamate receptor signaling pathway  (ISO)
regulation of peptidyl-tyrosine phosphorylation  (ISO)
response to amyloid-beta  (ISO)
response to ethanol  (ISO)
response to hydrogen peroxide  (IDA)
response to singlet oxygen  (IDA)
response to xenobiotic stimulus  (IEP)
T cell receptor signaling pathway  (IBA,ISO)
transmembrane receptor protein tyrosine kinase signaling pathway  (IBA)

References

References - curated
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3. Beyers AD, etal., Proc Natl Acad Sci U S A. 1992 Apr 1;89(7):2945-9.
4. Bock HH, etal., J Biol Chem 2003 Oct 3;278(40):38772-9. Epub 2003 Jul 25.
5. Carmo AM, etal., Eur J Immunol. 1993 Sep;23(9):2196-201.
6. Chen M, etal., Neurosci Lett. 2003 Mar 13;339(1):29-32.
7. Choi WS, etal., Mol Cell Biol 2004 Aug;24(16):6980-92.
8. Choudhry MA, etal., J Immunol. 1998 Jan 15;160(2):929-35.
9. Choudhry MA, etal., Shock. 2001 Mar;15(3):193-9.
10. Choudhry MA, etal., Shock. 2002 Sep;18(3):212-6.
11. Chow A, etal., FEBS Lett. 2000 Mar 3;469(1):88-92.
12. Clevenger CV and Medaglia MV, Mol Endocrinol. 1994 Jun;8(6):674-81.
13. Gaudet P, etal., Brief Bioinform. 2011 Sep;12(5):449-62. doi: 10.1093/bib/bbr042. Epub 2011 Aug 27.
14. GOA data from the GO Consortium
15. Grant SG, etal., Science 1992 Dec 18;258(5090):1903-10.
16. Ho GJ, etal., Neurobiol Aging 2005 May;26(5):625-35.
17. Holmes K, etal., Cell Signal. 2007 Oct;19(10):2003-12. Epub 2007 Jun 12.
18. Hou XY, etal., Brain Res 2002 Nov 15;955(1-2):123-32.
19. Kotadia BK, etal., Shock. 2003 Dec;20(6):517-20.
20. Lee G, etal., J Neurosci 2004 Mar 3;24(9):2304-12.
21. Matsushima S, etal., J Clin Invest. 2016 Sep 1;126(9):3403-16. doi: 10.1172/JCI85624. Epub 2016 Aug 15.
22. MGD data from the GO Consortium
23. Narisawa-Saito M, etal., Clin Exp Immunol. 1996 Oct;106(1):86-90.
24. NCBI rat LocusLink and RefSeq merged data July 26, 2002
25. Nishio H, etal., Brain Res 2002 Sep 20;950(1-2):203-9.
26. Ohnuma T, etal., Brain Res Mol Brain Res 2003 Apr 10;112(1-2):90-4.
27. Okada M, etal., J Biol Chem. 1991 Dec 25;266(36):24249-52.
28. Online Mendelian Inheritance in Man, OMIM (TM).
29. Pipeline to import KEGG annotations from KEGG into RGD
30. Pipeline to import Pathway Interaction Database annotations from NCI into RGD
31. Pipeline to import SMPDB annotations from SMPDB into RGD
32. Poole AW, etal., Trends Pharmacol Sci. 2004 Oct;25(10):528-35.
33. RGD automated data pipeline
34. RGD automated import pipeline for ClinVar variants, variant-to-disease annotations and gene-to-disease annotations
35. RGD automated import pipeline for gene-chemical interactions
36. Salvi M, etal., Biochim Biophys Acta 2002 Apr 3;1589(2):181-95.
37. Sanchez ES, etal., Glia. 2008 Jul;56(9):1017-27. doi: 10.1002/glia.20675.
38. Sedding DG, etal., Circ Res. 2005 Apr 1;96(6):635-42. Epub 2005 Feb 24.
39. Sperber BR, etal., J Neurosci 2001 Mar 15;21(6):2039-47.
40. Tang X, etal., Nat Cell Biol. 2008 Jun;10(6):698-706. doi: 10.1038/ncb1732. Epub 2008 May 11.
41. Tentative Sequence Data IDs. TIGR Gene Index, Rat Data
42. Tissir F and Goffinet AM, Nat Rev Neurosci. 2003 Jun;4(6):496-505.
43. Um JW, etal., Nat Neurosci. 2012 Sep;15(9):1227-35. doi: 10.1038/nn.3178. Epub 2012 Jul 22.
44. Um JW, etal., Neuron. 2013 Sep 4;79(5):887-902. doi: 10.1016/j.neuron.2013.06.036.
45. Won S, etal., Proc Natl Acad Sci U S A. 2016 Aug 9;113(32):E4736-44. doi: 10.1073/pnas.1609702113. Epub 2016 Jul 25.
46. Wu HY, etal., J Biol Chem. 2007 Jul 13;282(28):20075-87. doi: 10.1074/jbc.M700624200. Epub 2007 May 25.
47. Wyneken U, etal., Neuroscience. 2001;102(1):65-74.
48. Yagi T, etal., Nature 1993 Dec 23-30;366(6457):742-5.
49. Yaka R, etal., J Biol Chem 2003 Mar 14;278(11):9630-8.
50. Yaka R, etal., J Neurosci 2003 May 1;23(9):3623-32.
51. Yaka R, etal., Proc Natl Acad Sci U S A 2002 Apr 16;99(8):5710-5. Epub 2002 Apr 9.
Additional References at PubMed
PMID:1381360   PMID:1516132   PMID:2062320   PMID:7722293   PMID:8175795   PMID:8196616   PMID:8402898   PMID:8761480   PMID:9177270   PMID:9351809   PMID:9381182   PMID:9799234  
PMID:9892651   PMID:10366594   PMID:10498895   PMID:10861086   PMID:10872802   PMID:11110698   PMID:11181827   PMID:11448999   PMID:11826099   PMID:12150984   PMID:12372285   PMID:12538589  
PMID:12681493   PMID:12923167   PMID:14531861   PMID:14697322   PMID:14741357   PMID:14993658   PMID:15073522   PMID:15579503   PMID:15611048   PMID:16162939   PMID:16190898   PMID:16479011  
PMID:16709819   PMID:16841086   PMID:16860569   PMID:16921024   PMID:16979591   PMID:17462920   PMID:17623777   PMID:17923684   PMID:18089558   PMID:18354028   PMID:18682436   PMID:18697750  
PMID:18701695   PMID:18922801   PMID:19109931   PMID:19115405   PMID:19166962   PMID:19178193   PMID:19441121   PMID:19625508   PMID:19652227   PMID:19816407   PMID:19888448   PMID:20142099  
PMID:20569495   PMID:20655099   PMID:20978343   PMID:21829547   PMID:22057277   PMID:22433866   PMID:22437915   PMID:22802969   PMID:22833681   PMID:23169819   PMID:23386614   PMID:23438599  
PMID:23962429   PMID:24003228   PMID:24173619   PMID:24627473   PMID:24675471   PMID:25106729   PMID:25156556   PMID:25289695   PMID:25340851   PMID:25565773   PMID:26277342   PMID:26449489  
PMID:26777117   PMID:26901312   PMID:27001024   PMID:27520374   PMID:27692963   PMID:27926876   PMID:28497343   PMID:28948209   PMID:30129387   PMID:31840160   PMID:31852295   PMID:32145272  
PMID:32929078  


Genomics

Comparative Map Data
Fyn
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
mRatBN7.22042,767,733 - 42,960,903 (+)NCBImRatBN7.2
mRatBN7.2 Ensembl2042,766,369 - 42,959,911 (+)Ensembl
Rnor_6.02044,436,354 - 44,630,316 (+)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl2044,436,403 - 44,630,317 (+)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.02046,160,734 - 46,353,456 (+)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.42043,501,853 - 43,695,567 (+)NCBIRGSC3.4rn4RGSC3.4
RGSC_v3.12043,524,863 - 43,718,578 (+)NCBI
Celera2043,482,980 - 43,675,123 (+)NCBICelera
Cytogenetic Map20q12NCBI
FYN
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh38.p13 Ensembl6111,660,332 - 111,873,452 (-)EnsemblGRCh38hg38GRCh38
GRCh386111,660,332 - 111,873,452 (-)NCBIGRCh38GRCh38hg38GRCh38
GRCh376111,981,535 - 112,194,655 (-)NCBIGRCh37GRCh37hg19GRCh37
Build 366112,089,178 - 112,301,320 (-)NCBINCBI36hg18NCBI36
Build 346112,089,179 - 112,186,978NCBI
Celera6112,729,071 - 112,941,209 (-)NCBI
Cytogenetic Map6q21NCBI
HuRef6109,554,123 - 109,767,060 (-)NCBIHuRef
CHM1_16112,244,349 - 112,457,405 (-)NCBICHM1_1
Fyn
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm391039,245,735 - 39,441,377 (+)NCBIGRCm39mm39
GRCm39 Ensembl1039,244,851 - 39,441,377 (+)Ensembl
GRCm381039,369,743 - 39,565,381 (+)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl1039,368,855 - 39,565,381 (+)EnsemblGRCm38mm10GRCm38
MGSCv371039,089,605 - 39,285,187 (+)NCBIGRCm37mm9NCBIm37
MGSCv361039,059,502 - 39,254,797 (+)NCBImm8
Celera1040,254,667 - 40,450,960 (+)NCBICelera
Cytogenetic Map10B1NCBI
cM Map1020.51NCBI
Fyn
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_00495541136,401,842 - 36,512,054 (-)EnsemblChiLan1.0
ChiLan1.0NW_00495541136,403,156 - 36,597,660 (-)NCBIChiLan1.0ChiLan1.0
FYN
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
PanPan1.16113,545,944 - 113,732,893 (-)NCBIpanpan1.1PanPan1.1panPan2
PanPan1.1 Ensembl6113,545,944 - 113,604,451 (-)Ensemblpanpan1.1panPan2
Mhudiblu_PPA_v06109,469,750 - 109,684,086 (-)NCBIMhudiblu_PPA_v0panPan3
FYN
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.11268,105,060 - 68,316,630 (-)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl1268,075,184 - 68,316,541 (-)EnsemblCanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha1267,924,675 - 68,136,151 (-)NCBI
ROS_Cfam_1.01268,986,784 - 69,198,525 (-)NCBI
UMICH_Zoey_3.11268,338,226 - 68,549,311 (-)NCBI
UNSW_CanFamBas_1.01268,184,783 - 68,396,306 (-)NCBI
UU_Cfam_GSD_1.01268,510,644 - 68,722,405 (-)NCBI
Fyn
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_024404946103,155,533 - 103,356,140 (-)NCBI
SpeTri2.0NW_004936679388,500 - 588,518 (-)NCBISpeTri2.0SpeTri2.0SpeTri2.0
FYN
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl177,585,439 - 77,810,581 (-)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.1177,584,675 - 77,810,605 (-)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.2187,249,062 - 87,253,260 (-)NCBISscrofa10.2Sscrofa10.2susScr3
Sscrofa10.2187,146,809 - 87,191,215 (-)NCBISscrofa10.2Sscrofa10.2susScr3
Pig Cytomap1p13NCBI
FYN
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.11361,988,265 - 62,218,756 (+)NCBI
ChlSab1.1 Ensembl1362,159,874 - 62,219,672 (+)Ensembl
Vero_WHO_p1.0NW_02366604034,319,593 - 34,528,593 (+)NCBI
Fyn
(Heterocephalus glaber - naked mole-rat)
Naked Mole-rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla 1.0NW_004624933248,298 - 456,933 (+)NCBI

Position Markers
D20Rat55  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.22042,886,819 - 42,887,012 (+)MAPPERmRatBN7.2
Rnor_6.02044,555,562 - 44,555,754NCBIRnor6.0
Rnor_5.02046,279,994 - 46,280,186UniSTSRnor5.0
RGSC_v3.42043,622,153 - 43,622,346RGDRGSC3.4
RGSC_v3.42043,622,154 - 43,622,346UniSTSRGSC3.4
RGSC_v3.12043,645,165 - 43,645,357RGD
Celera2043,601,937 - 43,602,129UniSTS
RH 3.4 Map20456.5RGD
RH 3.4 Map20456.5UniSTS
RH 2.0 Map20505.7RGD
SHRSP x BN Map2034.4RGD
Cytogenetic Map20q13UniSTS
RH137616  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.22042,953,267 - 42,953,470 (+)MAPPERmRatBN7.2
Rnor_6.02044,622,917 - 44,623,119NCBIRnor6.0
Rnor_5.02046,346,156 - 46,346,358UniSTSRnor5.0
RGSC_v3.42043,690,007 - 43,690,209UniSTSRGSC3.4
Celera2043,668,270 - 43,668,472UniSTS
Cytogenetic Map20q13UniSTS
BE113818  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.22042,929,193 - 42,929,354 (+)MAPPERmRatBN7.2
Rnor_6.02044,599,140 - 44,599,300NCBIRnor6.0
Rnor_5.02046,322,955 - 46,323,115UniSTSRnor5.0
RGSC_v3.42043,665,213 - 43,665,373UniSTSRGSC3.4
RH 3.4 Map20464.21UniSTS
Cytogenetic Map20q13UniSTS
BF405827  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.22042,813,674 - 42,813,840 (+)MAPPERmRatBN7.2
Rnor_6.02044,482,223 - 44,482,388NCBIRnor6.0
Rnor_5.02046,206,603 - 46,206,768UniSTSRnor5.0
RGSC_v3.42043,547,466 - 43,547,631UniSTSRGSC3.4
Celera2043,528,623 - 43,528,788UniSTS
RH 3.4 Map20452.8UniSTS
Cytogenetic Map20q13UniSTS
FYN_1578  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.22042,959,298 - 42,959,937 (+)MAPPERmRatBN7.2
Rnor_6.02044,628,711 - 44,629,349NCBIRnor6.0
Rnor_5.02046,351,851 - 46,352,489UniSTSRnor5.0
RGSC_v3.42043,695,391 - 43,696,029UniSTSRGSC3.4
Celera2043,674,947 - 43,675,585UniSTS
Cytogenetic Map20q13UniSTS


QTLs in Region (mRatBN7.2)
The following QTLs overlap with this region.    Full Report CSV TAB Printer Gviewer
RGD IDSymbolNameLODP ValueTraitSub TraitChrStartStopSpecies
2305926Iddm37Insulin dependent diabetes mellitus QTL 376blood glucose amount (VT:0000188)plasma glucose level (CMO:0000042)20152784246527842Rat
1641915Colcr9Colorectal carcinoma resistance QTL 92.970.0024intestine integrity trait (VT:0010554)benign colorectal tumor number (CMO:0001795)20153065546530655Rat
1598816Memor12Memory QTL 122.4exploratory behavior trait (VT:0010471)average horizontal distance between subject and target during voluntary locomotion in an experimental apparatus (CMO:0002674)20260683647606836Rat
7411652Foco24Food consumption QTL 240.001eating behavior trait (VT:0001431)feed conversion ratio (CMO:0001312)201175751554435887Rat
9590092Insglur9Insulin/glucose ratio QTL 918.380.001blood insulin amount (VT:0001560)calculated plasma insulin level (CMO:0002170)201175751554435887Rat
4889610Pancm3Pancreatic morphology QTL 33.750.001pancreas mass (VT:0010144)pancreas wet weight (CMO:0000626)201761783247606836Rat
2317880Alcrsp25Alcohol response QTL 252.3response to alcohol trait (VT:0010489)duration of loss of righting reflex (CMO:0002289)201769755054435887Rat
2303626Vencon10Ventilatory control QTL 100.001respiration trait (VT:0001943)respiration rate (CMO:0000289)201919072154435887Rat
2303578Gluco50Glucose level QTL 502blood glucose amount (VT:0000188)blood glucose level (CMO:0000046)202510672254435887Rat
2303587Bw93Body weight QTL 9313body mass (VT:0001259)body weight (CMO:0000012)202510672254435887Rat
2300188Bmd68Bone mineral density QTL 686.40.0001femur mineral mass (VT:0010011)volumetric bone mineral density (CMO:0001553)202510672254435887Rat
1331747Hrtrt16Heart rate QTL 163.163heart pumping trait (VT:2000009)heart rate (CMO:0000002)202520973454435887Rat
1598869Memor6Memory QTL 63.1exploratory behavior trait (VT:0010471)total horizontal distance resulting from voluntary locomotion in an experimental apparatus (CMO:0001443)202924438854435887Rat
70158Bp60Blood pressure QTL 603arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)203161428444396023Rat


Genetic Models
This gene Fyn is modified in the following models/strains
miRNA Target Status

Predicted Target Of
Summary Value
Count of predictions:98
Count of miRNA genes:81
Interacting mature miRNAs:87
Transcripts:ENSRNOT00000000733
Prediction methods:Microtar, Miranda, Rnahybrid, Targetscan
Result types:miRGate_prediction

The detailed report is available here: Full Report CSV TAB Printer

miRNA Target Status data imported from miRGate (http://mirgate.bioinfo.cnio.es/).
For more information about miRGate, see PMID:25858286 or access the full paper here.


Expression


RNA-SEQ Expression
High: > 1000 TPM value   Medium: Between 11 and 1000 TPM
Low: Between 0.5 and 10 TPM   Below Cutoff: < 0.5 TPM

alimentary part of gastrointestinal system circulatory system endocrine system exocrine system hemolymphoid system hepatobiliary system integumental system musculoskeletal system nervous system renal system reproductive system respiratory system appendage
High
Medium 2 43 22 6 19 6 1 1 74 25 41 11 1
Low 1 35 35 35 7 10 10 7
Below cutoff

Sequence


Reference Sequences
RefSeq Acc Id: ENSRNOT00000000733   ⟹   ENSRNOP00000000733
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl2042,792,180 - 42,959,911 (+)Ensembl
Rnor_6.0 Ensembl2044,436,403 - 44,630,317 (+)Ensembl
RefSeq Acc Id: ENSRNOT00000075922   ⟹   ENSRNOP00000068462
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl2042,910,988 - 42,959,475 (+)Ensembl
Rnor_6.0 Ensembl2044,580,632 - 44,596,045 (+)Ensembl
RefSeq Acc Id: ENSRNOT00000076859   ⟹   ENSRNOP00000068458
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl2042,792,180 - 42,959,833 (+)Ensembl
Rnor_6.0 Ensembl2044,436,408 - 44,629,323 (+)Ensembl
RefSeq Acc Id: ENSRNOT00000085987   ⟹   ENSRNOP00000072210
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl2042,792,180 - 42,959,911 (+)Ensembl
Rnor_6.0 Ensembl2044,521,279 - 44,630,294 (+)Ensembl
RefSeq Acc Id: ENSRNOT00000118910   ⟹   ENSRNOP00000088889
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl2042,766,369 - 42,959,911 (+)Ensembl
RefSeq Acc Id: NM_012755   ⟹   NP_036887
RefSeq Status: PROVISIONAL
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.22042,768,059 - 42,959,475 (+)NCBI
Rnor_6.02044,436,680 - 44,628,887 (+)NCBI
Rnor_5.02046,160,734 - 46,353,456 (+)NCBI
RGSC_v3.42043,501,853 - 43,695,567 (+)RGD
Celera2043,482,980 - 43,675,123 (+)RGD
Sequence:
RefSeq Acc Id: XM_006256522   ⟹   XP_006256584
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.22042,767,733 - 42,960,903 (+)NCBI
Rnor_6.02044,436,354 - 44,630,316 (+)NCBI
Rnor_5.02046,160,734 - 46,353,456 (+)NCBI
Sequence:
RefSeq Acc Id: XM_017601549   ⟹   XP_017457038
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.22042,767,733 - 42,960,903 (+)NCBI
Rnor_6.02044,577,312 - 44,630,316 (+)NCBI
Sequence:
RefSeq Acc Id: XM_039098436   ⟹   XP_038954364
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.22042,767,733 - 42,960,903 (+)NCBI
Reference Sequences
RefSeq Acc Id: NP_036887   ⟸   NM_012755
- UniProtKB: Q62844 (UniProtKB/Swiss-Prot)
- Sequence:
RefSeq Acc Id: XP_006256584   ⟸   XM_006256522
- Peptide Label: isoform X1
- Sequence:
RefSeq Acc Id: XP_017457038   ⟸   XM_017601549
- Peptide Label: isoform X2
- Sequence:
RefSeq Acc Id: ENSRNOP00000000733   ⟸   ENSRNOT00000000733
RefSeq Acc Id: ENSRNOP00000068462   ⟸   ENSRNOT00000075922
RefSeq Acc Id: ENSRNOP00000072210   ⟸   ENSRNOT00000085987
RefSeq Acc Id: ENSRNOP00000068458   ⟸   ENSRNOT00000076859
RefSeq Acc Id: XP_038954364   ⟸   XM_039098436
- Peptide Label: isoform X3
RefSeq Acc Id: ENSRNOP00000088889   ⟸   ENSRNOT00000118910
Protein Domains
Protein kinase   SH2   SH3

Transcriptome

eQTL   View at Phenogen
WGCNA   View at Phenogen
Tissue/Strain Expression   View at Phenogen

Promoters
RGD ID:13701650
Promoter ID:EPDNEW_R12174
Type:initiation region
Name:Fyn_1
Description:FYN proto-oncogene, Src family tyrosine kinase
SO ACC ID:SO:0000170
Source:EPDNEW (Eukaryotic Promoter Database, http://epd.vital-it.ch/)
Experiment Methods:Single-end sequencing.
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.02044,436,397 - 44,436,457EPDNEW

Strain Variation

Strain Sequence Variants (Rnor 6.0)
ACI/EurMcwi (2019)
Visual CSV TAB Printer
Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
ACI/EurMcwi (MCW)
Visual CSV TAB Printer
Sequenced By: Medical College of Wisconsin (Dr. Howard Jacob)
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA v0.7.7 and GATK v3.2-2
Breeder: Medical College of Wisconsin
Description: Provided by the Medical College of Wisconsin (Dr. Howard Jacob)
ACI/EurMcwi (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
ACI/N (2020)
Visual CSV TAB Printer
Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: NIH
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
ACI/N (MCW)
Visual CSV TAB Printer
Sequenced By: Royal Netherland Academy of Arts and Sciences (Dr. Edwin Cuppen)
Max Delbruck Center for Molecular Medicine (Dr. Norbert Huebner)
Platform: SOLiD 4 and 5500
Secondary Analysis: liftOver (Batch Coordinate Conversion)--genome.ucsc.edu
Breeder: National Institutes of Health
Description: Founder strain for the heterogeneous stock (HS) rat population; SNPs from the RGSC 3.4 assembly were "lifted over" from RGSC 3.4 to Rnor 5.0 and from Rnor 5.0 to Rnor 6.0; Provided by Medical College of Wisconsin
BBDP/Wor (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
BN-Lx/CubMcwi (2019)
Visual CSV TAB Printer
Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
BN/NHsdMcwi (2019)
Visual CSV TAB Printer
Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
BN/NHsdMcwi (2020)
Visual CSV TAB Printer
Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
BN/SsN (2020)
Visual CSV TAB Printer
Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: NIH
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
BN/SsN (MCW)
Visual CSV TAB Printer
Sequenced By: Royal Netherland Academy of Arts and Sciences (Dr. Edwin Cuppen)
Max Delbruck Center for Molecular Medicine (Dr. Norbert Huebner)
Platform: SOLiD 4 and 5500
Secondary Analysis: liftOver (Batch Coordinate Conversion)--genome.ucsc.edu
Breeder: National Institutes of Health
Description: Founder strain for the heterogeneous stock (HS) rat population; SNPs from the RGSC 3.4 assembly were "lifted over" from RGSC 3.4 to Rnor 5.0 and from Rnor 5.0 to Rnor 6.0; Provided by Medical College of Wisconsin
BUF/N (2020)
Visual CSV TAB Printer
Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: NIH
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
BXH2/CubMcwi (2020)
Visual CSV TAB Printer
Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
BXH3/CubMcwi (2020)
Visual CSV TAB Printer
Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
Buf/N (MCW)
Visual CSV TAB Printer
Sequenced By: Royal Netherland Academy of Arts and Sciences (Dr. Edwin Cuppen)
Max Delbruck Center for Molecular Medicine (Dr. Norbert Huebner)
Platform: SOLiD 4 and 5500
Secondary Analysis: liftOver (Batch Coordinate Conversion)--genome.ucsc.edu
Breeder: National Institutes of Health
Description: Founder strain for the heterogeneous stock (HS) rat population; SNPs from the RGSC 3.4 assembly were "lifted over" from RGSC 3.4 to Rnor 5.0 and from Rnor 5.0 to Rnor 6.0; Provided by Medical College of Wisconsin
COP/CrCrl (MCW & UW)
Visual CSV TAB Printer
Sequenced By: Medical College of Wisconsin (Dr. Howard Jacob)
University of Wisconsin (Dr. James Shull)
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA v0.7.7 and GATK v3.2-2
Breeder: Charles River Laboratories
Description: Provided by the Medical College of Wisconsin (Dr. Howard Jacob) and UW Madison (Dr. James Shull)
DA/OlaHsd (2019)
Visual CSV TAB Printer
Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Envigo
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
F344/DuCrl (2019)
Visual CSV TAB Printer
Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Charles River
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
F344/N (2020)
Visual CSV TAB Printer
Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: NIH
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
F344/NCrl (2019)
Visual CSV TAB Printer
Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Charles River
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
F344/NCrl (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
F344/NRrrc (MCW)
Visual CSV TAB Printer
Sequenced By: Royal Netherland Academy of Arts and Sciences (Dr. Edwin Cuppen)
Max Delbruck Center for Molecular Medicine (Dr. Norbert Huebner)
Platform: SOLiD 4 and 5500
Secondary Analysis: liftOver (Batch Coordinate Conversion)--genome.ucsc.edu
Breeder: National Institutes of Health
Description: Founder strain for the heterogeneous stock (HS) rat population; SNPs from the RGSC 3.4 assembly were "lifted over" from RGSC 3.4 to Rnor 5.0 and from Rnor 5.0 to Rnor 6.0; Provided by Medical College of Wisconsin
F344/Stm (2019)
Visual CSV TAB Printer
Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Japan
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
FHH/EurMcwi (2019)
Visual CSV TAB Printer
Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
FHH/EurMcwi (MCW)
Visual CSV TAB Printer
Sequenced By: Medical College of Wisconsin (Dr. Howard Jacob)
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA v0.7.7 and GATK v3.2-2
Breeder: Medical College of Wisconsin
Description: Provided by the Medical College of Wisconsin (Dr. Howard Jacob)
FHH/EurMcwi (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
FHL/EurMcwi (MCW)
Visual CSV TAB Printer
Sequenced By: Medical College of Wisconsin (Dr. Howard Jacob)
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA v0.7.7 and GATK v3.2-2
Breeder: Medical College of Wisconsin
Description: Provided by the Medical College of Wisconsin (Dr. Howard Jacob)
FHL/EurMcwi (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
FXLE16/Stm (2020)
Visual CSV TAB Printer
Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Japan
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
FXLE18/Stm (2020)
Visual CSV TAB Printer
Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Japan
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
GH/OmrMcwi (MCW)
Visual CSV TAB Printer
Sequenced By: Medical College of Wisconsin (Dr. Howard Jacob)
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA v0.7.7 and GATK v3.2-2
Breeder: Medical College of Wisconsin
Description: Provided by the Medical College of Wisconsin (Dr. Howard Jacob)
GK/FarMcwi (2019)
Visual CSV TAB Printer
Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
GK/Ox (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
HXB10/IpcvMcwi (2019)
Visual CSV TAB Printer
Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
HXB2/IpcvMcwi (2019)
Visual CSV TAB Printer
Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
HXB20/IpcvMcwi (2020)
Visual CSV TAB Printer
Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
HXB31/IpcvMcwi (2019)
Visual CSV TAB Printer
Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
HXB4/IpcvMcwi (2020)
Visual CSV TAB Printer
Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
LE/Stm (2019)
Visual CSV TAB Printer
Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Japan
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
LE/Stm (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
LEW/Crl (2019)
Visual CSV TAB Printer
Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Charles River
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
LEW/Crl (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
LEW/NCrlBR (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
LEXF10A/StmMcwi (2020)
Visual CSV TAB Printer
Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
LEXF11/Stm (2020)
Visual CSV TAB Printer
Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Japan
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
LEXF1A/Stm (2019)
Visual CSV TAB Printer
Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Japan
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
LEXF1C/Stm (2019)
Visual CSV TAB Printer
Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Japan
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
LEXF2B/Stm (2019)
Visual CSV TAB Printer
Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Japan
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
LEXF3/Stm (2020)
Visual CSV TAB Printer
Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Japan
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
LEXF4/Stm (2020)
Visual CSV TAB Printer
Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Japan
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
LH/MavRrrc (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
LH/MavRrrcAek (2020)
Visual CSV TAB Printer
Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Kwitek
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
LL/MavRrrc (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
LL/MavRrrcAek (2020)
Visual CSV TAB Printer
Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Kwitek
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
LN/MavRrrc (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
LN/MavRrrcAek (2020)
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Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Kwitek
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
M520/N (2020)
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Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: NIH
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
M520/N (MCW)
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Sequenced By: Royal Netherland Academy of Arts and Sciences (Dr. Edwin Cuppen)
Max Delbruck Center for Molecular Medicine (Dr. Norbert Huebner)
Platform: SOLiD 4 and 5500
Secondary Analysis: liftOver (Batch Coordinate Conversion)--genome.ucsc.edu
Breeder: National Institutes of Health
Description: Founder strain for the heterogeneous stock (HS) rat population; SNPs from the RGSC 3.4 assembly were "lifted over" from RGSC 3.4 to Rnor 5.0 and from Rnor 5.0 to Rnor 6.0; Provided by Medical College of Wisconsin
M520/NRrrcMcwi (2019)
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Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
MHS/Gib (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
MNS/Gib (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
MR/N (2020)
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Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: NIH
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
MR/N (MCW)
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Sequenced By: Royal Netherland Academy of Arts and Sciences (Dr. Edwin Cuppen)
Max Delbruck Center for Molecular Medicine (Dr. Norbert Huebner)
Platform: SOLiD 4 and 5500
Secondary Analysis: liftOver (Batch Coordinate Conversion)--genome.ucsc.edu
Breeder: National Institutes of Health
Description: Founder strain for the heterogeneous stock (HS) rat population; SNPs from the RGSC 3.4 assembly were "lifted over" from RGSC 3.4 to Rnor 5.0 and from Rnor 5.0 to Rnor 6.0; Provided by Medical College of Wisconsin
MWF/Hsd (2019)
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Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
PVG/Seac (2019)
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Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Japan
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
SBH/Ygl (MCW)
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Sequenced By: Medical College of Wisconsin (Dr. Howard Jacob)
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA v0.7.7 and GATK v3.2-2
Breeder: Medical College of Wisconsin
Description: SBH/Ygl sequenced by MCW
SBH/Ygl (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
SBN/Ygl (MCW)
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Sequenced By: Medical College of Wisconsin (Dr. Howard Jacob)
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA v0.7.7 and GATK v3.2-2
Breeder: Medical College of Wisconsin
Description: SBN/Ygl sequenced by MCW
SBN/Ygl (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
SHR/NHsd (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
SHR/OlalpcvMcwi (2019)
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Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
SHRSP/A3NCrl (2019)
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Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Charles River
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
SHRSP/Gcrc (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
SR/JrHsd (2020)
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Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Envigo
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
SR/JrHsd (MCW)
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Sequenced By: Medical College of Wisconsin (Dr. Howard Jacob)
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA v0.7.7 and GATK v3.2-2
Breeder: Harlan Laboratories
Description: Provided by the Medical College of Wisconsin (Dr. Howard Jacob)
SR/JrHsd (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
SS/Jr (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
SS/JrHsdMcwi (2019)
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Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
SS/JrHsdMcwi (MCW)
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Sequenced By: Medical College of Wisconsin (Dr. Howard Jacob)
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA v0.7.7 and GATK v3.2-2
Breeder: Medical College of Wisconsin
Description: Provided by the Medical College of Wisconsin (Dr. Howard Jacob)
SS/JrHsdMcwi (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
WAG/Rij (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
WAG/RijCrl (2020)
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Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Charles River
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
WKY/Gcrc (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
WKY/N (2020)
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Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: NIH
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
WKY/N (MCW)
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Sequenced By: Royal Netherland Academy of Arts and Sciences (Dr. Edwin Cuppen)
Max Delbruck Center for Molecular Medicine (Dr. Norbert Huebner)
Platform: SOLiD 4 and 5500
Secondary Analysis: liftOver (Batch Coordinate Conversion)--genome.ucsc.edu
Breeder: National Institutes of Health
Description: Founder strain for the heterogeneous stock (HS) rat population; SNPs from the RGSC 3.4 assembly were "lifted over" from RGSC 3.4 to Rnor 5.0 and from Rnor 5.0 to Rnor 6.0; Provided by Medical College of Wisconsin
WKY/NCrl (2019)
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Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Charles River
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
WKY/NCrl (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
WKY/NHsd (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
WN/N (2020)
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Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: NIH
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
WN/N (MCW)
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Sequenced By: Royal Netherland Academy of Arts and Sciences (Dr. Edwin Cuppen)
Max Delbruck Center for Molecular Medicine (Dr. Norbert Huebner)
Platform: SOLiD 4 and 5500
Secondary Analysis: liftOver (Batch Coordinate Conversion)--genome.ucsc.edu
Breeder: National Institutes of Health
Description: Founder strain for the heterogeneous stock (HS) rat population; SNPs from the RGSC 3.4 assembly were "lifted over" from RGSC 3.4 to Rnor 5.0 and from Rnor 5.0 to Rnor 6.0; Provided by Medical College of Wisconsin

Additional Information

Database Acc Id Source(s)
AGR Gene RGD:2641 AgrOrtholog
Ensembl Genes ENSRNOG00000000596 Ensembl, ENTREZGENE, UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
Ensembl Protein ENSRNOP00000000733 ENTREZGENE, UniProtKB/Swiss-Prot
  ENSRNOP00000068458 UniProtKB/TrEMBL
  ENSRNOP00000068462 UniProtKB/TrEMBL
  ENSRNOP00000072210 UniProtKB/TrEMBL
Ensembl Transcript ENSRNOT00000000733 ENTREZGENE, UniProtKB/Swiss-Prot
  ENSRNOT00000075922 UniProtKB/TrEMBL
  ENSRNOT00000076859 UniProtKB/TrEMBL
  ENSRNOT00000085987 UniProtKB/TrEMBL
Gene3D-CATH 3.30.505.10 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
InterPro Fyn/Yrk_SH3 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  Kinase-like_dom_sf UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  Prot_kinase_dom UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  Protein_kinase_ATP_BS UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  Ser-Thr/Tyr_kinase_cat_dom UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  SH2 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  SH2_dom_sf UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  SH3-like_dom_sf UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  SH3_domain UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  Tyr_kinase_AS UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  Tyr_kinase_cat_dom UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
KEGG Report rno:25150 UniProtKB/Swiss-Prot
NCBI Gene 25150 ENTREZGENE
Pfam Pkinase_Tyr UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  SH2 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  SH3_1 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
PhenoGen Fyn PhenoGen
PRINTS SH2DOMAIN UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  SH3DOMAIN UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  TYRKINASE UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
PROSITE PROTEIN_KINASE_ATP UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  PROTEIN_KINASE_DOM UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  PROTEIN_KINASE_TYR UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  SH2 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  SH3 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
SMART SH2 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  SH3 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  TyrKc UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
Superfamily-SCOP SSF50044 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  SSF55550 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  SSF56112 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
TIGR TC207354
UniProt A0A096MKC1_RAT UniProtKB/TrEMBL
  A0A096MKC5_RAT UniProtKB/TrEMBL
  A0A0G2K2E3_RAT UniProtKB/TrEMBL
  FYN_RAT UniProtKB/Swiss-Prot, ENTREZGENE


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2008-09-18 Fyn  FYN oncogene related to SRC, FGR, YES  Fyn  fyn proto-oncogene  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2002-06-10 Fyn  Fyn proto-oncogene      Symbol and Name status set to approved 70586 APPROVED

RGD Curation Notes
Note Type Note Reference
gene_physical_interaction coexpressed with and binds to Cbl protein in the cerebellum 632732